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Conserved domains on  [gi|489820170|ref|WP_003723977|]
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blue-light photoreceptor [Listeria monocytogenes]

Protein Classification

PAS and STAS_RsbR_RsbS_like domain-containing protein( domain architecture ID 13491419)

PAS and STAS_RsbR_RsbS_like domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK13558 super family cl36264
bacterio-opsin activator; Provisional
 2-141 4.56e-42

bacterio-opsin activator; Provisional


The actual alignment was detected with superfamily member PRK13558:

Pssm-ID: 237426 [Multi-domain]  Cd Length: 665  Bit Score: 151.91  E-value: 4.56e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   2 TAYPQFDVILKALNLSSVGVIITDPEQKDNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKST 81
Cdd:PRK13558 142 TVESDRRLKERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAELREAIDEERP 221

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489820170  82 ANVLLKNYRKDGTSFMNELTIEPIYD-DHEHLYFVGIQKDVTTEHDYQLELEKSLTEIEKL 141
Cdd:PRK13558 222 TSVELRNYRKDGSTFWNQVDIAPIRDeDGTVTHYVGFQTDVTERKEAELALQRERRKLQRL 282
STAS_RsbR_RsbS_like cd07041
Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex ...
 142-250 1.51e-33

Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain of proteins related to RsbS and RsbR which are part of the "stressosome" complex that plays an important role in the regulation of the bacterial stress activated alternative sigma factor sigma-B. During stress conditions RsbS and RsbR are phosphorylated which leads to the release of RsbT, an activator of of the RsbU phosphatase, which in turn activates RsbV which leads to the release and activation of sigma factor B. RsbS is a single domain protein (STAS domain), while RsbR-like proteins have a well-conserved C-terminal STATS domain and a variable N-terminal domain. The STAS domain is also found in the C- terminal region of sulphate transporters and anti-anti-sigma factors.


:

Pssm-ID: 132912  Cd Length: 109  Bit Score: 117.17  E-value: 1.51e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170 142 STPIVPIKENICVLPLIGSLTHDRFQHMSEYVSEYMDHGKEDYLIMDLSGLAEFNEDAVMNLVKFHGFMKLTGVELIITG 221
Cdd:cd07041    1 STPIIPVWDGVLVLPLIGDLDDERAEQLQERLLEAISRRRARGVIIDLTGVPVIDSAVARHLLRLARALRLLGARTILTG 80

                         90       100
                 ....*....|....*....|....*....
gi 489820170 222 ISPKFAMTLIRYEENLASLTTYSTIKEAL 250
Cdd:cd07041   81 IRPEVAQTLVELGIDLSGIRTAATLQQAL 109
 
Name Accession Description Interval E-value
PRK13558 PRK13558
bacterio-opsin activator; Provisional
 2-141 4.56e-42

bacterio-opsin activator; Provisional


Pssm-ID: 237426 [Multi-domain]  Cd Length: 665  Bit Score: 151.91  E-value: 4.56e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   2 TAYPQFDVILKALNLSSVGVIITDPEQKDNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKST 81
Cdd:PRK13558 142 TVESDRRLKERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAELREAIDEERP 221

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489820170  82 ANVLLKNYRKDGTSFMNELTIEPIYD-DHEHLYFVGIQKDVTTEHDYQLELEKSLTEIEKL 141
Cdd:PRK13558 222 TSVELRNYRKDGSTFWNQVDIAPIRDeDGTVTHYVGFQTDVTERKEAELALQRERRKLQRL 282
STAS_RsbR_RsbS_like cd07041
Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex ...
 142-250 1.51e-33

Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain of proteins related to RsbS and RsbR which are part of the "stressosome" complex that plays an important role in the regulation of the bacterial stress activated alternative sigma factor sigma-B. During stress conditions RsbS and RsbR are phosphorylated which leads to the release of RsbT, an activator of of the RsbU phosphatase, which in turn activates RsbV which leads to the release and activation of sigma factor B. RsbS is a single domain protein (STAS domain), while RsbR-like proteins have a well-conserved C-terminal STATS domain and a variable N-terminal domain. The STAS domain is also found in the C- terminal region of sulphate transporters and anti-anti-sigma factors.


Pssm-ID: 132912  Cd Length: 109  Bit Score: 117.17  E-value: 1.51e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170 142 STPIVPIKENICVLPLIGSLTHDRFQHMSEYVSEYMDHGKEDYLIMDLSGLAEFNEDAVMNLVKFHGFMKLTGVELIITG 221
Cdd:cd07041    1 STPIIPVWDGVLVLPLIGDLDDERAEQLQERLLEAISRRRARGVIIDLTGVPVIDSAVARHLLRLARALRLLGARTILTG 80

                         90       100
                 ....*....|....*....|....*....
gi 489820170 222 ISPKFAMTLIRYEENLASLTTYSTIKEAL 250
Cdd:cd07041   81 IRPEVAQTLVELGIDLSGIRTAATLQQAL 109
PAS COG2202
PAS domain [Signal transduction mechanisms];
13-134 3.67e-24

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 97.40  E-value: 3.67e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  13 ALNLSSVGVIITDPeqkDNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLKNYRKD 92
Cdd:COG2202   16 LVESSPDAIIITDL---DGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAGGGVWRGELRNRRKD 92

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 489820170  93 GTSFMNELTIEPIYDDH-EHLYFVGIQKDVTTEHDYQLELEKS 134
Cdd:COG2202   93 GSLFWVELSISPVRDEDgEITGFVGIARDITERKRAEEALRES 135
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 30-122 4.60e-16

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 71.34  E-value: 4.60e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   30 DNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDtdkEEVAKIRHAINEKSTANVL-LKNYRKDGTSFMNELTIEPIYDD 108
Cdd:pfam13426   1 DGRIIYVNDAALRLLGYTREELLGKSITDLFAEP---EDSERLREALREGKAVREFeVVLYRKDGEPFPVLVSLAPIRDD 77

                          90
                  ....*....|....*
gi 489820170  109 HEHL-YFVGIQKDVT 122
Cdd:pfam13426  78 GGELvGIIAILRDIT 92
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 13-131 3.63e-12

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions]


Pssm-ID: 272971 [Multi-domain]  Cd Length: 124  Bit Score: 61.54  E-value: 3.63e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   13 ALNLSSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLKNY-RK 91
Cdd:TIGR00229   8 IFESSPDAIIVIDLEGN---ILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERRLEGEPEPVSEERRVrRK 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 489820170   92 DGTSFMNELTIEPIYDDHEHLYFVGIQKDVTTEHDYQLEL 131
Cdd:TIGR00229  85 DGSEIWVEVSVSPIRTNGGELGVVGIVRDITERKEAEEAL 124
SpoIIAA COG1366
Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) [Signal transduction ...
 146-230 3.40e-11

Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) [Signal transduction mechanisms];


Pssm-ID: 440977 [Multi-domain]  Cd Length: 93  Bit Score: 58.33  E-value: 3.40e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170 146 VPIKENICVLPLIGSLTHDRFQHMSEYVSEYMDHGkEDYLIMDLSGLAEFNEDAVMNLVKFHGFMKLTGVELIITGISPK 225
Cdd:COG1366    4 VEVRDGVLVLPLIGELDAARAPELREALLEALETG-ARRVVLDLSGVTFIDSSGLGALLSLAKAARLLGGRLVLVGVSPA 82


                 ....*
gi 489820170 226 FAMTL 230
Cdd:COG1366   83 VARVL 87
STAS pfam01740
STAS domain; The STAS (after Sulphate Transporter and AntiSigma factor antagonist) domain is ...
 144-249 1.98e-07

STAS domain; The STAS (after Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C terminal region of Sulphate transporters and bacterial antisigma factor antagonists. It has been suggested that this domain may have a general NTP binding function.


Pssm-ID: 426404 [Multi-domain]  Cd Length: 106  Bit Score: 47.99  E-value: 1.98e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  144 PIVPIKENICVLPLIGSLTHDRFQHMSEYVSEYMDHGKEDYLIMDLSGLAEFNEDAVMNLVKFHGFMKLTGVELIITGIS 223
Cdd:pfam01740   2 PEAEEIPGILILRLDGPLDFANAESLRERLLRALEEGEIKHVVLDLSAVPFIDSSGLGALEELYKELRRRGVELVLVGPS 81

                          90       100
                  ....*....|....*....|....*.
gi 489820170  224 PKFAMTLIRYeENLASLTTYSTIKEA 249
Cdd:pfam01740  82 PEVARTLEKT-GLDDIIKIFPTVAEA 106
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 17-121 2.03e-07

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 48.01  E-value: 2.03e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  17 SSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLKNYRKDGTSF 96
Cdd:cd00130    1 LPDGVIVLDLDGR---ILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVI 77

                         90       100
                 ....*....|....*....|....*.
gi 489820170  97 MNELTIEPIYDDH-EHLYFVGIQKDV 121
Cdd:cd00130   78 WVLVSLTPIRDEGgEVIGLLGVVRDI 103
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 13-55 4.55e-04

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 37.76  E-value: 4.55e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 489820170    13 ALNLSSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSN 55
Cdd:smart00091   6 ILESLPDGIFVLDLDGR---ILYANPAAEELLGYSPEELIGKS 45
 
Name Accession Description Interval E-value
PRK13558 PRK13558
bacterio-opsin activator; Provisional
 2-141 4.56e-42

bacterio-opsin activator; Provisional


Pssm-ID: 237426 [Multi-domain]  Cd Length: 665  Bit Score: 151.91  E-value: 4.56e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   2 TAYPQFDVILKALNLSSVGVIITDPEQKDNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKST 81
Cdd:PRK13558 142 TVESDRRLKERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAELREAIDEERP 221

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489820170  82 ANVLLKNYRKDGTSFMNELTIEPIYD-DHEHLYFVGIQKDVTTEHDYQLELEKSLTEIEKL 141
Cdd:PRK13558 222 TSVELRNYRKDGSTFWNQVDIAPIRDeDGTVTHYVGFQTDVTERKEAELALQRERRKLQRL 282
PRK13557 PRK13557
histidine kinase; Provisional
 8-178 2.17e-38

histidine kinase; Provisional


Pssm-ID: 237425 [Multi-domain]  Cd Length: 540  Bit Score: 140.19  E-value: 2.17e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   8 DVILKALNLSSVGVIITDPEQKDNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLK 87
Cdd:PRK13557  30 DIFFAAVETTRMPMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVAEVRDAIAERREIATEIL 109

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  88 NYRKDGTSFMNELTIEPIYDDHEHL-YFVGIQKDVTTEHDyqleLEKSLTEIEKLSTpivpikenicvlplIGSLT---- 162
Cdd:PRK13557 110 NYRKDGSSFWNALFVSPVYNDAGDLvYFFGSQLDVSRRRD----AEDALRQAQKMEA--------------LGQLTggia 171

                        170
                 ....*....|....*.
gi 489820170 163 HDrFQHMSEYVSEYMD 178
Cdd:PRK13557 172 HD-FNNLLQVMSGYLD 186
PRK13559 PRK13559
hypothetical protein; Provisional
 21-122 6.85e-35

hypothetical protein; Provisional


Pssm-ID: 237427 [Multi-domain]  Cd Length: 361  Bit Score: 128.01  E-value: 6.85e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  21 VIITDPEQKDNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLKNYRKDGTSFMNEL 100
Cdd:PRK13559  56 MCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKIRAAIAAEREIVVELLNYRKDGEPFWNAL 135

                         90       100
                 ....*....|....*....|...
gi 489820170 101 TIEPIYDDHEHL-YFVGIQKDVT 122
Cdd:PRK13559 136 HLGPVYGEDGRLlYFFGSQWDVT 158
STAS_RsbR_RsbS_like cd07041
Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex ...
 142-250 1.51e-33

Sulphate Transporter and Anti-Sigma factor antagonist domain of the "stressosome" complex proteins RsbS and RsbR, regulators of the bacterial stress activated alternative sigma factor sigma-B by phosphorylation; The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain of proteins related to RsbS and RsbR which are part of the "stressosome" complex that plays an important role in the regulation of the bacterial stress activated alternative sigma factor sigma-B. During stress conditions RsbS and RsbR are phosphorylated which leads to the release of RsbT, an activator of of the RsbU phosphatase, which in turn activates RsbV which leads to the release and activation of sigma factor B. RsbS is a single domain protein (STAS domain), while RsbR-like proteins have a well-conserved C-terminal STATS domain and a variable N-terminal domain. The STAS domain is also found in the C- terminal region of sulphate transporters and anti-anti-sigma factors.


Pssm-ID: 132912  Cd Length: 109  Bit Score: 117.17  E-value: 1.51e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170 142 STPIVPIKENICVLPLIGSLTHDRFQHMSEYVSEYMDHGKEDYLIMDLSGLAEFNEDAVMNLVKFHGFMKLTGVELIITG 221
Cdd:cd07041    1 STPIIPVWDGVLVLPLIGDLDDERAEQLQERLLEAISRRRARGVIIDLTGVPVIDSAVARHLLRLARALRLLGARTILTG 80

                         90       100
                 ....*....|....*....|....*....
gi 489820170 222 ISPKFAMTLIRYEENLASLTTYSTIKEAL 250
Cdd:cd07041   81 IRPEVAQTLVELGIDLSGIRTAATLQQAL 109
PAS COG2202
PAS domain [Signal transduction mechanisms];
13-134 3.67e-24

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 97.40  E-value: 3.67e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  13 ALNLSSVGVIITDPeqkDNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLKNYRKD 92
Cdd:COG2202   16 LVESSPDAIIITDL---DGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAGGGVWRGELRNRRKD 92

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|...
gi 489820170  93 GTSFMNELTIEPIYDDH-EHLYFVGIQKDVTTEHDYQLELEKS 134
Cdd:COG2202   93 GSLFWVELSISPVRDEDgEITGFVGIARDITERKRAEEALRES 135
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 30-122 4.60e-16

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 71.34  E-value: 4.60e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   30 DNPIIFVNTGFENITGYAKEEALGSNCHFLQGDDtdkEEVAKIRHAINEKSTANVL-LKNYRKDGTSFMNELTIEPIYDD 108
Cdd:pfam13426   1 DGRIIYVNDAALRLLGYTREELLGKSITDLFAEP---EDSERLREALREGKAVREFeVVLYRKDGEPFPVLVSLAPIRDD 77

                          90
                  ....*....|....*
gi 489820170  109 HEHL-YFVGIQKDVT 122
Cdd:pfam13426  78 GGELvGIIAILRDIT 92
NtrB COG3852
Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];
13-143 9.34e-14

Signal transduction histidine kinase NtrB, nitrogen specific [Signal transduction mechanisms];


Pssm-ID: 443061 [Multi-domain]  Cd Length: 361  Bit Score: 69.88  E-value: 9.34e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  13 ALNLSSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSNCH-FLQGDDTDKEEVAKIRHaiNEKSTANVLLKNYRK 91
Cdd:COG3852   12 ILDSLPDAVIVLDADGR---ITYVNPAAERLLGLSAEELLGRPLAeLFPEDSPLRELLERALA--EGQPVTEREVTLRRK 86

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 489820170  92 DGTSFMNELTIEPIYDDHEHLYFVGIQKDVTtehdYQLELEKSLTEIEKLST 143
Cdd:COG3852   87 DGEERPVDVSVSPLRDAEGEGGVLLVLRDIT----ERKRLERELRRAEKLAA 134
sensory_box TIGR00229
PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain ...
 13-131 3.63e-12

PAS domain S-box; The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. [Regulatory functions, Small molecule interactions]


Pssm-ID: 272971 [Multi-domain]  Cd Length: 124  Bit Score: 61.54  E-value: 3.63e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   13 ALNLSSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLKNY-RK 91
Cdd:TIGR00229   8 IFESSPDAIIVIDLEGN---ILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERRLEGEPEPVSEERRVrRK 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 489820170   92 DGTSFMNELTIEPIYDDHEHLYFVGIQKDVTTEHDYQLEL 131
Cdd:TIGR00229  85 DGSEIWVEVSVSPIRTNGGELGVVGIVRDITERKEAEEAL 124
SpoIIAA COG1366
Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) [Signal transduction ...
 146-230 3.40e-11

Anti-anti-sigma regulatory factor (antagonist of anti-sigma factor) [Signal transduction mechanisms];


Pssm-ID: 440977 [Multi-domain]  Cd Length: 93  Bit Score: 58.33  E-value: 3.40e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170 146 VPIKENICVLPLIGSLTHDRFQHMSEYVSEYMDHGkEDYLIMDLSGLAEFNEDAVMNLVKFHGFMKLTGVELIITGISPK 225
Cdd:COG1366    4 VEVRDGVLVLPLIGELDAARAPELREALLEALETG-ARRVVLDLSGVTFIDSSGLGALLSLAKAARLLGGRLVLVGVSPA 82


                 ....*
gi 489820170 226 FAMTL 230
Cdd:COG1366   83 VARVL 87
RocR COG3829
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ...
 14-133 6.50e-10

RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];


Pssm-ID: 443041 [Multi-domain]  Cd Length: 448  Bit Score: 58.63  E-value: 6.50e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  14 LNLSSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSNCHFLQGDDTdkeevakIRHAINEKSTANVLLKNYRKDG 93
Cdd:COG3829   17 LDSLDDGIIVVDADGR---ITYVNRAAERILGLPREEVIGKNVTELIPNSP-------LLEVLKTGKPVTGVIQKTGGKG 86

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489820170  94 TSFMNelTIEPIYDDHEHLYFVGIQKDVTTEHDYQLELEK 133
Cdd:COG3829   87 KTVIV--TAIPIFEDGEVIGAVETFRDITELKRLERKLRE 124
PAS COG2202
PAS domain [Signal transduction mechanisms];
13-131 3.25e-08

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 53.10  E-value: 3.25e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  13 ALNLSSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAI-NEKSTANVLLKNYRK 91
Cdd:COG2202  142 LVENAPDGIFVLDLDGR---ILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELLRRLLeGGRESYELELRLKDG 218

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 489820170  92 DGTSFMNELTIEPIYDDHEHLYFVGIQKDVTTEHDYQLEL 131
Cdd:COG2202  219 DGRWVWVEASAVPLRDGGEVIGVLGIVRDITERKRAEEAL 258
KinE COG5809
Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ...
 17-220 7.13e-08

Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444511 [Multi-domain]  Cd Length: 489  Bit Score: 52.67  E-value: 7.13e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  17 SSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLKNYRKDGTSF 96
Cdd:COG5809   24 APDAILILDLEGK---ILKVNPAAERIFGYTEDELLGTNILDFLHPDDEKELREILKLLKEGESRDELEFELRHKNGKRL 100

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  97 MNELTIEPIYDDH-EHLYFVGIQKDVTtehdYQLELEKSLTEIEKLSTPIVPIKENicvlpLIGSLTHD-RFQHMSEYVS 174
Cdd:COG5809  101 EFSSKLSPIFDQNgDIEGMLAISRDIT----ERKRMEEALRESEEKFRLIFNHSPD-----GIIVTDLDgRIIYANPAAC 171

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*.
gi 489820170 175 EYMDHGKEDYLIMDLSGLaeFNEDAVMNLVKFHGFMKLTGVELIIT 220
Cdd:COG5809  172 KLLGISIEELIGKSILEL--IHSDDQENVAAFISQLLKDGGIAQGE 215
STAS pfam01740
STAS domain; The STAS (after Sulphate Transporter and AntiSigma factor antagonist) domain is ...
 144-249 1.98e-07

STAS domain; The STAS (after Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C terminal region of Sulphate transporters and bacterial antisigma factor antagonists. It has been suggested that this domain may have a general NTP binding function.


Pssm-ID: 426404 [Multi-domain]  Cd Length: 106  Bit Score: 47.99  E-value: 1.98e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  144 PIVPIKENICVLPLIGSLTHDRFQHMSEYVSEYMDHGKEDYLIMDLSGLAEFNEDAVMNLVKFHGFMKLTGVELIITGIS 223
Cdd:pfam01740   2 PEAEEIPGILILRLDGPLDFANAESLRERLLRALEEGEIKHVVLDLSAVPFIDSSGLGALEELYKELRRRGVELVLVGPS 81

                          90       100
                  ....*....|....*....|....*.
gi 489820170  224 PKFAMTLIRYeENLASLTTYSTIKEA 249
Cdd:pfam01740  82 PEVARTLEKT-GLDDIIKIFPTVAEA 106
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 17-121 2.03e-07

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 48.01  E-value: 2.03e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  17 SSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSNCHFLQGDDTDKEEVAKIRHAINEKSTANVLLKNYRKDGTSF 96
Cdd:cd00130    1 LPDGVIVLDLDGR---ILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVI 77

                         90       100
                 ....*....|....*....|....*.
gi 489820170  97 MNELTIEPIYDDH-EHLYFVGIQKDV 121
Cdd:cd00130   78 WVLVSLTPIRDEGgEVIGLLGVVRDI 103
KinE COG5809
Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome ...
 12-142 1.19e-06

Sporulation sensor histidine kinase E [Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 444511 [Multi-domain]  Cd Length: 489  Bit Score: 48.82  E-value: 1.19e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170  12 KALNLSSVGVIITDpeqKDNPIIFVNTGFENITGYAKEEALGSNC-HFLQGDDtdKEEVAK-IRHAINEKSTANVLLKNY 89
Cdd:COG5809  145 LIFNHSPDGIIVTD---LDGRIIYANPAACKLLGISIEELIGKSIlELIHSDD--QENVAAfISQLLKDGGIAQGEVRFW 219

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 489820170  90 RKDGTSFMNELTIEPIYDDHEHLYFVGIQKDVTTEHDYQLELEKSlteiEKLS 142
Cdd:COG5809  220 TKDGRWRLLEASGAPIKKNGEVDGIVIIFRDITERKKLEELLRKS----EKLS 268
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 14-121 1.24e-06

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 46.26  E-value: 1.24e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   14 LNLSSVGVIITDpeqKDNPIIFVNTGFENITGYAKEEALGSNC-HFLQGDD--TDKEEVAKIRHAINEKSTANVLLKnyR 90
Cdd:pfam00989   7 LESLPDGIFVVD---EDGRILYVNAAAEELLGLSREEVIGKSLlDLIPEEDdaEVAELLRQALLQGEESRGFEVSFR--V 81

                          90       100       110
                  ....*....|....*....|....*....|..
gi 489820170   91 KDGTSFMNELTIEPIYD-DHEHLYFVGIQKDV 121
Cdd:pfam00989  82 PDGRPRHVEVRASPVRDaGGEILGFLGVLRDI 113
PAS_3 pfam08447
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 33-115 2.65e-04

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya.


Pssm-ID: 430001 [Multi-domain]  Cd Length: 89  Bit Score: 38.86  E-value: 2.65e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489820170   33 IIFVNTGFENITGYAKEEALGSNCHFLQ---GDDTDKEEVAkIRHAINEKSTANVLLKNYRKDGTSFMNELTIEPIYDDH 109
Cdd:pfam08447   1 IIYWSPRFEEILGYTPEELLGKGESWLDlvhPDDRERVREA-LWEALKGGEPYSGEYRIRRKDGEYRWVEARARPIRDEN 79


                  ....*.
gi 489820170  110 EHLYFV 115
Cdd:pfam08447  80 GKPVRV 85
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 13-55 4.55e-04

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 37.76  E-value: 4.55e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 489820170    13 ALNLSSVGVIITDPEQKdnpIIFVNTGFENITGYAKEEALGSN 55
Cdd:smart00091   6 ILESLPDGIFVLDLDGR---ILYANPAAEELLGYSPEELIGKS 45
PAC smart00086
Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); PAC motif ...
 86-122 9.67e-04

Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); PAC motif occurs C-terminal to a subset of all known PAS motifs. It is proposed to contribute to the PAS domain fold.


Pssm-ID: 197509  Cd Length: 43  Bit Score: 36.01  E-value: 9.67e-04
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 489820170    86 LKNYRKDGTSFMNELTIEPIYDDH-EHLYFVGIQKDVT 122
Cdd:smart00086   4 YRLRRKDGSYIWVLVSASPIRDEDgEVEGILGVVRDIT 41
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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